Useful Publications and Websites for Deep Sequencing Data Analysis
...t sequencing data. Ilie et al, Bioinformatics 27(3):295, 2011 Full Text Error correction of high-throughput sequencing datasets with non-uniform coverage. Medvedev et al., Bioinformat...3780 days ago
Next generation sequencing in R or bioconductor environment
...ng exercise for an example of using rtracklayer to visualize alignment coverage. Documentation biomaRt The...peaks with the BayesPeak package as well as the incorporation of read coverage information obtained by the c...3625 days ago
Commercial and public next-gen-seq (NGS) software
...read sequencing technologies, such as Solexa or 454. Need about 20-25X coverage and paired reads. Developed b...experiments. It uses a naive algorithm for identifying regions of high coverage, which represent Chromatin Im...3519 days ago
Software packages for next gen sequence analysis
...read sequencing technologies, such as Solexa or 454. Need about 20-25X coverage and paired reads. Developed b...experiments. It uses a naive algorithm for identifying regions of high coverage, which represent Chromatin Im...3243 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...covariates); Analyzes mutations discovered in DNA sequencing to identify genes that were mutated more often than expected Input: mutations.maf, coverage.txt, covariates.txt Output:...2909 days ago
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Genome Assembly Tools and Software - PART1 !!
...ic studies incorporating read COverage, CorrelAtion, sequence COmpos...with their sizes representing coverage of their corresponding isofor...emble large genomes from high coverage short read data. The major go...fragments, both at about 45x coverage. Sequence from longer fragmen...2686 days ago
Quick next generation sequencing (NGS) terms definition
...n (indel).read depth: number of reads that map within a region of the genome. Overall genome-wide read depth is also referred to as depth of coverage. It is expected that the numb...2523 days ago
Awesome perl frameworks, libraries and software - PART 1
...he old perl SDL binding on cpan.org yanick/Template-Mustache - Drawing Mustaches on Perl, for fun and profit pjcj/Devel--Cover - Code coverage metrics for Perl sebthebert/...2490 days ago
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